Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day7
Only strains with sufficient reads to estimate fitness are shown,
but the strain fitness values are still rather noisy and may be biased towards zero.
Strains near the edge of a gene are not shown as being associated with that
gene (they are in grey).
Strains in the central 10-90% of a gene are color coded by the insertion's strand.
Usually, "+" means that the selectable marker is encoded on the forward strand,
i.e., transcribed rightward.
500 nt HMPREF1058_RS09465 and HMPREF1058_RS09460 are separated by 45 nucleotides HMPREF1058_RS09460 and HMPREF1058_RS09455 are separated by 9 nucleotides HMPREF1058_RS09455 and HMPREF1058_RS09450 are separated by 168 nucleotides HMPREF1058_RS09450 and HMPREF1058_RS09445 are separated by 77 nucleotides
HMPREF1058_RS09465: HMPREF1058_RS09465 - porin family protein, at 878,678 to 879,169
_RS09465
HMPREF1058_RS09460: HMPREF1058_RS09460 - gamma carbonic anhydrase family protein, at 879,215 to 879,739
_RS09460
HMPREF1058_RS09455: HMPREF1058_RS09455 - aminopeptidase P family protein, at 879,749 to 881,530
_RS09455
HMPREF1058_RS09450: HMPREF1058_RS09450 - 30S ribosomal protein S21, at 881,699 to 881,890
_RS09450
HMPREF1058_RS09445: HMPREF1058_RS09445 - tyrosine-type recombinase/integrase, at 881,968 to 882,849
_RS09445
Position (kb) 879
880
881
882 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 878.803 kb on + strand, within HMPREF1058_RS09465 at 878.872 kb on + strand, within HMPREF1058_RS09465 at 878.877 kb on + strand, within HMPREF1058_RS09465 at 878.877 kb on + strand, within HMPREF1058_RS09465 at 878.878 kb on - strand, within HMPREF1058_RS09465 at 878.878 kb on - strand, within HMPREF1058_RS09465 at 878.882 kb on - strand, within HMPREF1058_RS09465 at 878.882 kb on - strand, within HMPREF1058_RS09465 at 878.900 kb on + strand, within HMPREF1058_RS09465 at 878.900 kb on + strand at 878.900 kb on + strand, within HMPREF1058_RS09465 at 878.900 kb on + strand, within HMPREF1058_RS09465 at 878.900 kb on + strand, within HMPREF1058_RS09465 at 878.905 kb on + strand, within HMPREF1058_RS09465 at 878.905 kb on + strand, within HMPREF1058_RS09465 at 878.906 kb on - strand, within HMPREF1058_RS09465 at 878.906 kb on - strand, within HMPREF1058_RS09465 at 878.909 kb on - strand, within HMPREF1058_RS09465 at 878.939 kb on - strand, within HMPREF1058_RS09465 at 878.962 kb on + strand, within HMPREF1058_RS09465 at 878.962 kb on + strand, within HMPREF1058_RS09465 at 878.963 kb on - strand, within HMPREF1058_RS09465 at 879.025 kb on + strand, within HMPREF1058_RS09465 at 879.025 kb on + strand, within HMPREF1058_RS09465 at 879.026 kb on - strand, within HMPREF1058_RS09465 at 879.026 kb on - strand, within HMPREF1058_RS09465 at 879.034 kb on - strand, within HMPREF1058_RS09465 at 879.091 kb on + strand, within HMPREF1058_RS09465 at 879.092 kb on - strand, within HMPREF1058_RS09465 at 879.092 kb on - strand, within HMPREF1058_RS09465 at 879.154 kb on + strand at 879.183 kb on - strand at 879.194 kb on - strand at 879.206 kb on + strand at 879.206 kb on + strand at 879.210 kb on + strand at 879.211 kb on - strand at 879.252 kb on - strand at 879.252 kb on - strand at 879.252 kb on - strand at 879.338 kb on + strand, within HMPREF1058_RS09460 at 879.389 kb on + strand, within HMPREF1058_RS09460 at 879.394 kb on + strand, within HMPREF1058_RS09460 at 879.394 kb on + strand, within HMPREF1058_RS09460 at 879.395 kb on - strand, within HMPREF1058_RS09460 at 879.422 kb on + strand, within HMPREF1058_RS09460 at 879.423 kb on - strand, within HMPREF1058_RS09460 at 879.425 kb on + strand, within HMPREF1058_RS09460 at 879.476 kb on + strand, within HMPREF1058_RS09460 at 879.477 kb on - strand, within HMPREF1058_RS09460 at 879.535 kb on - strand, within HMPREF1058_RS09460 at 879.536 kb on + strand, within HMPREF1058_RS09460 at 879.536 kb on + strand, within HMPREF1058_RS09460 at 879.536 kb on + strand, within HMPREF1058_RS09460 at 879.537 kb on - strand, within HMPREF1058_RS09460 at 879.537 kb on - strand, within HMPREF1058_RS09460 at 879.541 kb on + strand, within HMPREF1058_RS09460 at 879.542 kb on - strand, within HMPREF1058_RS09460 at 879.542 kb on - strand, within HMPREF1058_RS09460 at 879.542 kb on - strand, within HMPREF1058_RS09460 at 879.545 kb on + strand, within HMPREF1058_RS09460 at 879.545 kb on + strand, within HMPREF1058_RS09460 at 879.546 kb on - strand, within HMPREF1058_RS09460 at 879.549 kb on - strand, within HMPREF1058_RS09460 at 879.549 kb on - strand, within HMPREF1058_RS09460 at 879.549 kb on - strand, within HMPREF1058_RS09460 at 879.661 kb on + strand, within HMPREF1058_RS09460 at 879.661 kb on + strand, within HMPREF1058_RS09460 at 879.665 kb on - strand, within HMPREF1058_RS09460 at 879.740 kb on - strand at 879.740 kb on - strand at 879.743 kb on + strand at 879.744 kb on - strand at 879.771 kb on - strand at 879.771 kb on - strand at 879.771 kb on - strand at 879.841 kb on - strand at 879.905 kb on - strand at 879.917 kb on - strand at 879.917 kb on - strand at 879.934 kb on - strand, within HMPREF1058_RS09455 at 879.971 kb on + strand, within HMPREF1058_RS09455 at 879.971 kb on + strand, within HMPREF1058_RS09455 at 879.972 kb on - strand, within HMPREF1058_RS09455 at 879.988 kb on + strand, within HMPREF1058_RS09455 at 879.992 kb on + strand, within HMPREF1058_RS09455 at 879.993 kb on - strand, within HMPREF1058_RS09455 at 879.993 kb on - strand, within HMPREF1058_RS09455 at 879.993 kb on - strand, within HMPREF1058_RS09455 at 880.012 kb on + strand, within HMPREF1058_RS09455 at 880.015 kb on - strand, within HMPREF1058_RS09455 at 880.016 kb on + strand, within HMPREF1058_RS09455 at 880.018 kb on + strand, within HMPREF1058_RS09455 at 880.056 kb on - strand, within HMPREF1058_RS09455 at 880.118 kb on + strand, within HMPREF1058_RS09455 at 880.118 kb on + strand, within HMPREF1058_RS09455 at 880.166 kb on - strand, within HMPREF1058_RS09455 at 880.188 kb on - strand at 880.238 kb on - strand, within HMPREF1058_RS09455 at 880.248 kb on - strand, within HMPREF1058_RS09455 at 880.254 kb on - strand at 880.261 kb on - strand, within HMPREF1058_RS09455 at 880.292 kb on + strand, within HMPREF1058_RS09455 at 880.300 kb on + strand, within HMPREF1058_RS09455 at 880.303 kb on + strand, within HMPREF1058_RS09455 at 880.304 kb on - strand at 880.312 kb on + strand, within HMPREF1058_RS09455 at 880.432 kb on - strand, within HMPREF1058_RS09455 at 880.502 kb on - strand, within HMPREF1058_RS09455 at 880.505 kb on + strand, within HMPREF1058_RS09455 at 880.505 kb on + strand, within HMPREF1058_RS09455 at 880.506 kb on - strand, within HMPREF1058_RS09455 at 880.507 kb on + strand, within HMPREF1058_RS09455 at 880.507 kb on + strand, within HMPREF1058_RS09455 at 880.610 kb on + strand, within HMPREF1058_RS09455 at 880.667 kb on + strand, within HMPREF1058_RS09455 at 880.778 kb on + strand, within HMPREF1058_RS09455 at 880.783 kb on + strand, within HMPREF1058_RS09455 at 880.804 kb on - strand, within HMPREF1058_RS09455 at 880.835 kb on + strand, within HMPREF1058_RS09455 at 880.838 kb on + strand, within HMPREF1058_RS09455 at 880.839 kb on - strand, within HMPREF1058_RS09455 at 880.840 kb on + strand, within HMPREF1058_RS09455 at 880.840 kb on + strand, within HMPREF1058_RS09455 at 880.840 kb on + strand, within HMPREF1058_RS09455 at 880.840 kb on + strand, within HMPREF1058_RS09455 at 880.841 kb on - strand, within HMPREF1058_RS09455 at 880.841 kb on - strand, within HMPREF1058_RS09455 at 880.844 kb on + strand, within HMPREF1058_RS09455 at 880.845 kb on - strand, within HMPREF1058_RS09455 at 880.850 kb on - strand, within HMPREF1058_RS09455 at 880.855 kb on + strand, within HMPREF1058_RS09455 at 880.855 kb on + strand, within HMPREF1058_RS09455 at 880.880 kb on + strand, within HMPREF1058_RS09455 at 880.902 kb on - strand, within HMPREF1058_RS09455 at 880.956 kb on - strand, within HMPREF1058_RS09455 at 881.045 kb on + strand, within HMPREF1058_RS09455 at 881.046 kb on - strand, within HMPREF1058_RS09455 at 881.088 kb on - strand, within HMPREF1058_RS09455 at 881.118 kb on - strand, within HMPREF1058_RS09455 at 881.216 kb on + strand, within HMPREF1058_RS09455 at 881.276 kb on - strand, within HMPREF1058_RS09455 at 881.279 kb on - strand, within HMPREF1058_RS09455 at 881.292 kb on - strand, within HMPREF1058_RS09455 at 881.365 kb on + strand at 881.424 kb on + strand at 881.424 kb on + strand at 881.425 kb on - strand at 881.425 kb on - strand at 881.425 kb on - strand at 881.500 kb on + strand at 881.505 kb on - strand at 881.509 kb on + strand at 881.516 kb on - strand at 881.542 kb on + strand at 881.543 kb on - strand at 881.554 kb on + strand at 881.580 kb on - strand at 881.597 kb on + strand at 881.628 kb on + strand at 881.672 kb on + strand at 882.029 kb on + strand at 882.033 kb on + strand at 882.388 kb on + strand, within HMPREF1058_RS09445 at 882.388 kb on + strand, within HMPREF1058_RS09445
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day7 remove 878,803 + HMPREF1058_RS09465 0.25 +0.9 878,872 + HMPREF1058_RS09465 0.39 +0.2 878,877 + HMPREF1058_RS09465 0.40 +0.3 878,877 + HMPREF1058_RS09465 0.40 -0.8 878,878 - HMPREF1058_RS09465 0.41 -0.3 878,878 - HMPREF1058_RS09465 0.41 -0.6 878,882 - HMPREF1058_RS09465 0.41 -0.9 878,882 - HMPREF1058_RS09465 0.41 -1.0 878,900 + HMPREF1058_RS09465 0.45 -0.7 878,900 + +0.5 878,900 + HMPREF1058_RS09465 0.45 +0.1 878,900 + HMPREF1058_RS09465 0.45 +1.4 878,900 + HMPREF1058_RS09465 0.45 -0.1 878,905 + HMPREF1058_RS09465 0.46 -1.1 878,905 + HMPREF1058_RS09465 0.46 +1.6 878,906 - HMPREF1058_RS09465 0.46 -0.0 878,906 - HMPREF1058_RS09465 0.46 +1.5 878,909 - HMPREF1058_RS09465 0.47 -0.6 878,939 - HMPREF1058_RS09465 0.53 +0.1 878,962 + HMPREF1058_RS09465 0.58 +1.0 878,962 + HMPREF1058_RS09465 0.58 -0.6 878,963 - HMPREF1058_RS09465 0.58 +1.0 879,025 + HMPREF1058_RS09465 0.71 -0.4 879,025 + HMPREF1058_RS09465 0.71 +2.1 879,026 - HMPREF1058_RS09465 0.71 +0.9 879,026 - HMPREF1058_RS09465 0.71 +1.1 879,034 - HMPREF1058_RS09465 0.72 +0.2 879,091 + HMPREF1058_RS09465 0.84 -0.3 879,092 - HMPREF1058_RS09465 0.84 +1.8 879,092 - HMPREF1058_RS09465 0.84 +0.5 879,154 + +1.2 879,183 - +0.1 879,194 - -1.3 879,206 + +0.3 879,206 + -0.9 879,210 + +0.3 879,211 - -0.5 879,252 - -2.1 879,252 - -1.7 879,252 - -1.9 879,338 + HMPREF1058_RS09460 0.23 +0.3 879,389 + HMPREF1058_RS09460 0.33 -2.1 879,394 + HMPREF1058_RS09460 0.34 -0.8 879,394 + HMPREF1058_RS09460 0.34 -1.8 879,395 - HMPREF1058_RS09460 0.34 -1.2 879,422 + HMPREF1058_RS09460 0.39 -1.1 879,423 - HMPREF1058_RS09460 0.40 -2.3 879,425 + HMPREF1058_RS09460 0.40 -1.8 879,476 + HMPREF1058_RS09460 0.50 -0.7 879,477 - HMPREF1058_RS09460 0.50 -0.0 879,535 - HMPREF1058_RS09460 0.61 +0.6 879,536 + HMPREF1058_RS09460 0.61 +1.8 879,536 + HMPREF1058_RS09460 0.61 -2.3 879,536 + HMPREF1058_RS09460 0.61 -1.3 879,537 - HMPREF1058_RS09460 0.61 -2.8 879,537 - HMPREF1058_RS09460 0.61 -0.0 879,541 + HMPREF1058_RS09460 0.62 -0.1 879,542 - HMPREF1058_RS09460 0.62 -1.8 879,542 - HMPREF1058_RS09460 0.62 +0.5 879,542 - HMPREF1058_RS09460 0.62 -3.2 879,545 + HMPREF1058_RS09460 0.63 -0.7 879,545 + HMPREF1058_RS09460 0.63 -1.4 879,546 - HMPREF1058_RS09460 0.63 -1.1 879,549 - HMPREF1058_RS09460 0.64 -0.5 879,549 - HMPREF1058_RS09460 0.64 -1.2 879,549 - HMPREF1058_RS09460 0.64 -1.1 879,661 + HMPREF1058_RS09460 0.85 +0.2 879,661 + HMPREF1058_RS09460 0.85 -3.5 879,665 - HMPREF1058_RS09460 0.86 -1.8 879,740 - +1.9 879,740 - -0.8 879,743 + -2.5 879,744 - -2.5 879,771 - -0.2 879,771 - +0.8 879,771 - -1.2 879,841 - -1.4 879,905 - -1.1 879,917 - -2.1 879,917 - -0.0 879,934 - HMPREF1058_RS09455 0.10 -2.3 879,971 + HMPREF1058_RS09455 0.12 -1.2 879,971 + HMPREF1058_RS09455 0.12 -4.3 879,972 - HMPREF1058_RS09455 0.13 -2.7 879,988 + HMPREF1058_RS09455 0.13 -1.1 879,992 + HMPREF1058_RS09455 0.14 +0.4 879,993 - HMPREF1058_RS09455 0.14 +0.3 879,993 - HMPREF1058_RS09455 0.14 -0.7 879,993 - HMPREF1058_RS09455 0.14 -3.0 880,012 + HMPREF1058_RS09455 0.15 -1.3 880,015 - HMPREF1058_RS09455 0.15 -0.1 880,016 + HMPREF1058_RS09455 0.15 +0.3 880,018 + HMPREF1058_RS09455 0.15 -3.2 880,056 - HMPREF1058_RS09455 0.17 -1.5 880,118 + HMPREF1058_RS09455 0.21 -0.8 880,118 + HMPREF1058_RS09455 0.21 -0.5 880,166 - HMPREF1058_RS09455 0.23 +0.6 880,188 - +0.5 880,238 - HMPREF1058_RS09455 0.27 -1.0 880,248 - HMPREF1058_RS09455 0.28 +0.3 880,254 - -0.5 880,261 - HMPREF1058_RS09455 0.29 -1.4 880,292 + HMPREF1058_RS09455 0.30 -1.5 880,300 + HMPREF1058_RS09455 0.31 -1.5 880,303 + HMPREF1058_RS09455 0.31 +0.5 880,304 - -1.5 880,312 + HMPREF1058_RS09455 0.32 -1.2 880,432 - HMPREF1058_RS09455 0.38 -0.1 880,502 - HMPREF1058_RS09455 0.42 -0.3 880,505 + HMPREF1058_RS09455 0.42 +0.6 880,505 + HMPREF1058_RS09455 0.42 -2.5 880,506 - HMPREF1058_RS09455 0.42 -1.3 880,507 + HMPREF1058_RS09455 0.43 -0.9 880,507 + HMPREF1058_RS09455 0.43 -1.8 880,610 + HMPREF1058_RS09455 0.48 -0.8 880,667 + HMPREF1058_RS09455 0.52 +1.2 880,778 + HMPREF1058_RS09455 0.58 +1.5 880,783 + HMPREF1058_RS09455 0.58 -2.8 880,804 - HMPREF1058_RS09455 0.59 -2.4 880,835 + HMPREF1058_RS09455 0.61 -1.1 880,838 + HMPREF1058_RS09455 0.61 -0.3 880,839 - HMPREF1058_RS09455 0.61 -1.8 880,840 + HMPREF1058_RS09455 0.61 -0.5 880,840 + HMPREF1058_RS09455 0.61 -0.8 880,840 + HMPREF1058_RS09455 0.61 -2.6 880,840 + HMPREF1058_RS09455 0.61 -2.3 880,841 - HMPREF1058_RS09455 0.61 -0.3 880,841 - HMPREF1058_RS09455 0.61 -1.8 880,844 + HMPREF1058_RS09455 0.61 -1.5 880,845 - HMPREF1058_RS09455 0.62 -0.9 880,850 - HMPREF1058_RS09455 0.62 -2.6 880,855 + HMPREF1058_RS09455 0.62 -1.8 880,855 + HMPREF1058_RS09455 0.62 -0.2 880,880 + HMPREF1058_RS09455 0.63 -1.1 880,902 - HMPREF1058_RS09455 0.65 -2.5 880,956 - HMPREF1058_RS09455 0.68 -1.4 881,045 + HMPREF1058_RS09455 0.73 -2.7 881,046 - HMPREF1058_RS09455 0.73 -0.4 881,088 - HMPREF1058_RS09455 0.75 -1.0 881,118 - HMPREF1058_RS09455 0.77 -1.2 881,216 + HMPREF1058_RS09455 0.82 -0.1 881,276 - HMPREF1058_RS09455 0.86 -0.5 881,279 - HMPREF1058_RS09455 0.86 -0.5 881,292 - HMPREF1058_RS09455 0.87 +1.2 881,365 + -0.8 881,424 + -2.1 881,424 + -2.1 881,425 - -2.3 881,425 - -0.5 881,425 - -1.1 881,500 + -0.3 881,505 - -1.8 881,509 + -1.2 881,516 - -2.1 881,542 + +3.7 881,543 - -1.6 881,554 + -0.7 881,580 - -0.5 881,597 + -1.5 881,628 + -2.5 881,672 + -0.5 882,029 + +0.5 882,033 + +0.5 882,388 + HMPREF1058_RS09445 0.48 -2.3 882,388 + HMPREF1058_RS09445 0.48 -1.5
Or see this region's nucleotide sequence